RetrogeneDB ID: retro_vpac_263

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_3436:927714..927909(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: MGST2
• Ensembl ID: ENSVPAG00000005209
• Aliases: None
• Description: microsomal glutathione S-transferase 2 [Source:HGNC Symbol;Acc:7063]

Sequence

>retro_vpac_263
CAGAACTGAGTGGAATTTTACCCAATATTCATGACCACCTTCTGGATAGCGGCATGAACTCTGAGCAAGTTTCCCTGCTT
GTCTGGGTCTATCATACCTGTATGCTAGACACCAGTACTTCTGAGGATGTTCAGAAACTGTTCAGCAGAGGTCACTGGCA
TCTAGTTGCACCTGCGGATTTGGCCCTCATTGACT

Alignment

ORF - retro_vpac_263 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.62 %
• Parental protein coverage: 52.38 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QNCVEFYPVFMITLWMA-GLYFNQV-FATCLGLVYVYARYQYFWGYSEDAKKR-ITGFRLSLGVLALLT
          QN.VEFYP.FM.T.W.A.G....QV.F..CLGL.Y.YAR.QYF.G.SE....R..TG..L.L.....LT
Retrocopy QN*VEFYPIFMTTFWIA<GMNSEQV<FPACLGLSYLYARHQYF*GCSETVQQR<VTGI*LHLRIWPSLT

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq

Vicugna pacos was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_vpac_263 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_263 was not experimentally validated.

Homology

Retrocopy orthology:

Vicugna pacos does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000019195	1 retrocopy	retro_ecab_520,
Vicugna pacos	ENSVPAG00000005209	1 retrocopy	retro_vpac_263 ,